trvinh / bionf_utilities

bionf_utilities

HOW TO USE

1. Pull the image The docker image can be pulled from Docker Hub using this command

docker pull trvinh/bionf_utilities

2. Run the container

docker run -it trvinh/bionf_utilities

or run the image using Docker Desktop dashboard and open CLI.

HOW TO MAINTAIN THE IMAGE

1. Clone or fork this repo

2. Make changes for these files: Dockerfile, dependencies.txt and tools.txt

3. Build the image

docker build . -t trvinh/bionf_utilities[:0.1.2] --platform linux/amd64 --progress=plain

Note: you need to replace trvinh by your Docker Username. :0.1.2 specifies the TAG of your build (if empty, the default tag latest will be applied)

4. Push to Docker Hub

docker push trvinh/bionf_utilities[:0.1.2]

Check this document for more info!

TOOLS included

• FAS
• fDOG
• fCAT

Those tools can be used directly without running the setup of each tool. For example:

# FAS annotation
fas.doAnno -i test_annofas.fa -o test_fas

# fDOG
fdog.run --seqFile infile.fa --jobName test_fdog --refspec HUMAN@9606@3